emily_WNV
A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2025-10-15, 16:01 MDT
based on data in:
/nfs/home/rsbg/01_fastq/04_emily_ebel_bulk_midgut_data_eg_RNAseq/RVFVLifeStageRNASeq/01_Fastp/DeDupFastqHTMLs/nfs/home/rsbg/01_fastq/04_emily_ebel_bulk_midgut_data_eg_RNAseq/RVFVLifeStageRNASeq/01_Fastp/DeDupFastqJSONs
General Statistics
Showing 18/18 rows and 5/7 columns.
| Sample Name | % Duplication | % > Q30 | Mb Q30 bases | Reads After Filtering | GC content | % PF | % Adapter |
|---|---|---|---|---|---|---|---|
| 22_WNV_A_S1_L003_R1_001 | 52.0% | 93.2% | 6397.7Mb | 121.9M | 51.0% | 98.8% | 54.8% |
| 22_WNV_B_S2_L003_R1_001 | 51.7% | 93.3% | 6960.3Mb | 129.3M | 49.9% | 98.8% | 53.9% |
| 22_WNV_C_S3_L003_R1_001 | 57.8% | 92.6% | 7000.2Mb | 146.0M | 50.2% | 98.8% | 45.3% |
| 22_mock_A_S4_L003_R1_001 | 49.1% | 93.4% | 2847.6Mb | 51.2M | 52.0% | 98.9% | 60.8% |
| 22_mock_B_S5_L003_R1_001 | 57.0% | 92.2% | 3742.7Mb | 79.4M | 52.7% | 98.7% | 45.1% |
| 22_mock_C_S6_L003_R1_001 | 62.0% | 89.8% | 1370.5Mb | 34.6M | 57.7% | 98.6% | 32.3% |
| 26_WNV_A_S7_L003_R1_001 | 56.1% | 93.6% | 6675.6Mb | 126.5M | 51.6% | 98.9% | 42.4% |
| 26_WNV_B_S8_L003_R1_001 | 63.9% | 89.0% | 1752.7Mb | 46.7M | 56.5% | 98.6% | 34.8% |
| 26_WNV_C_S9_L003_R1_001 | 55.0% | 93.5% | 3090.9Mb | 59.4M | 51.7% | 99.1% | 47.6% |
| 26_mock_A_S10_L003_R1_001 | 59.6% | 92.7% | 4434.8Mb | 95.7M | 51.5% | 98.9% | 47.4% |
| 26_mock_B_S11_L003_R1_001 | 64.9% | 90.4% | 2809.1Mb | 72.8M | 54.0% | 98.7% | 38.7% |
| 26_mock_C_S12_L003_R1_001 | 61.4% | 87.0% | 1268.3Mb | 34.8M | 58.3% | 98.5% | 30.8% |
| 30_WNV_A_S13_L003_R1_001 | 56.9% | 91.8% | 5677.0Mb | 121.7M | 51.4% | 98.7% | 51.5% |
| 30_WNV_B_S14_L003_R1_001 | 52.4% | 93.2% | 2728.5Mb | 52.1M | 51.2% | 99.0% | 57.1% |
| 30_WNV_C_S15_L003_R1_001 | 57.6% | 92.5% | 3867.2Mb | 82.9M | 50.7% | 99.0% | 54.3% |
| 30_mock_A_S16_L003_R1_001 | 60.3% | 91.2% | 1987.1Mb | 46.8M | 51.8% | 98.8% | 45.4% |
| 30_mock_B_S17_L003_R1_001 | 63.3% | 90.4% | 2842.1Mb | 73.9M | 51.9% | 98.8% | 48.9% |
| 30_mock_C_S18_L003_R1_001 | 60.9% | 92.2% | 5915.1Mb | 136.8M | 49.6% | 98.9% | 50.3% |
fastp
Version:
0.24.1
All-in-one FASTQ preprocessor (QC, adapters, trimming, filtering, splitting...).URL: https://github.com/OpenGene/fastpDOI: 10.1093/bioinformatics/bty560
Fastp goes through fastq files in a folder and perform a series of quality control and filtering. Quality control and reporting are displayed both before and after filtering, allowing for a clear depiction of the consequences of the filtering process. Notably, the latter can be conducted on a variety of parameters including quality scores, length, as well as the presence of adapters, polyG, or polyX tailing.Filtered Reads
Filtering statistics of sampled reads.
Insert Sizes
Insert size estimation of sampled reads.
Created with MultiQC
Sequence Quality
Average sequencing quality over each base of all reads.
Created with MultiQC
GC Content
Average GC content over each base of all reads.
Created with MultiQC
N content
Average N content over each base of all reads.
Created with MultiQC
Software Versions
Software Versions lists versions of software tools extracted from file contents.
| Software | Version |
|---|---|
| fastp | 0.24.1 |
